Paired-End
Whole genome characterization by shotgun sequencing from both ends of DNA fragments with ~200bp inserts. Specialty large inserts libraries are available upon request for an additional charge.
The Paired-End and Mate-Pair strategies are similar to those previously used to assemble large genomes, like Human and Mouse. Both “ends” of long pieces of DNA with a known size distribution are sequenced. In this way, assemblers can be assured that the reads must be placed within a defined distance of each other.
Paired-End (PE) reads are thus useful for two purposes. It is essential to use PE for any data we plan on assembling. This includes new genomes, genomes suspected to have significant structural variation from sequenced references, or novel transcriptomes.
PE reads can also be used to detect larger structural variants, including chromosomal rearrangements and large indels. The PE linking information can be used to check for significantly large sets of reads with unexpectedly large or small inserts or reads with ends on different chromosomes.
PE libraries are similarly made from 5 micrograms of total DNA. Specialty long insert mate-pair libraries (select from 1-10kb inserts) require much larger amounts of DNA as all but the ends are discarded.