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E. coli recombinant clones were sequenced at both ends of the insert with flanking vector sequences as primers.
The protein was predicted to be a transposase in COG3335 (Expected value = 8e−14) and 27-nt imperfect inverted repeats were present at both ends of the insert.
We considered all TAR clones with a size >6.5 kb as positive and demonstrated that all clones with total sizes above 9 kb contained var genes as confirmed by sequencing of the 5' and 3' ends of the insert.
The reaction involved a brief denaturation step to denature the double-stranded insert and the linear vector, an annealing step for the overlapping ends of the insert and the vector to hybridize, and an extension step to form a complete plasmid (see Methods).
(b) The reads at the ends of the insert must map unambiguously to the ends.
The digestion patterns of iREX/BAC1 were identical to those of the original BAC clone, except for the fragments derived from the ends of the insert.
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The 5' ends of the inserts were sequenced with a single pass.
Both ends of the inserted fragments were sequenced.
Following this strategy, sequence information could be obtained for both ends of the inserted DNA.
Primer pairs were chosen from both ends of the inserts, which allows PCR to amplify the entire OHC cDNA insert.
The sequence of two ends of the inserted gene was also consistent with BamH I site and Sal I site.
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