Mate-pair reads were aligned individually and subsequently a pairing process was conducted to pair the individual reads.
(c) Small RNA annotation frequency (percentage relative to total abundance) of clusters (distinct) and individual reads (abundance).
Individual reads are split by introducing breaks into the assembly and these are further used to define the alternative connections between contigs.
We assessed the level of coverage of individual BAC clones in the pools by mapping of individual reads onto the assembled chromosome arm.
To date it is still my most widely-read piece, with thousands of individual reads since 2008.
Data on the mapping of individual reads was obtained using the 'pileup' option of MAQ.
The individual reads were assembled into five contigs using Phred-Phrap software (http://www.phrap.org/).
Next the linker sequences were identified and trimmed from individual reads using a customized Perl script.
Under key conditions, BFAST is improves the likelihood of correct genomic placement of individual reads over a wide variety of scenarios.
Mapping accuracy appeared to correlate with the quality of the individual reads, rather than with parameters related to the mapping procedure itself.
We generated a corrected assembly of the entire genome along with detailed information on the placement of individual reads within the assembly.
