Products & Solutions
Multi Span Paired End Reads
Faster, Easier, More Complete De Novo Sequencing and High Quality Draft Assembly
Click to download flyers and view assembly data:
Take your de novo sequencing projects to new lengths with the GS FLX Titanium series reagents on the Genome Sequencer FLX System. The powerful combination of GS FLX Titanium series multi-span (3 kb, 8 kb, 20 kb) paired end and long shotgun reads, along with included software tools brings you the most complete solution for end-to-end de novo sequencing and high quality draft assembly. Generate assemblies with longer contigs and fewer, larger scaffolds for straightforward finishing, if desired.
Paired end reads (also known as "mate pair" reads) supplement shotgun reads to significantly improve de novo assemblies by completely or partially spanning highly repetitive genomic regions. Paired end reads aid in:
- Ordering contigs into large scaffolds
- Determining the sequence within larger repeat regions
- Identifying structural variations, including insertions, deletions, rearrangements and copy number variations
| 4 Microbial Genomes = 4 Scaffolds, in a Single Sequencing Run | ||||
| S. pneumoniae | E. coli | T. thermophilus | C. jejuni | |
| Number of Chromosomes | 1 | 1 | 2 | 1 |
| Large Scaffolds | 1 | 1 | 2 | 1 |
| Genome Size | 2.2 Mb | 4.6 Mb | 2.1 Mb | 1.6 Mb |
| N50 Scaffold Size | 2.2 Mb | 4.6 Mb | 1.9 Mb | 1.6 Mb |
| N50 Contig Size | 26.1 Kb | 57.1 Kb | 10.5 Kb | 153.8 Kb |
Table 1: The Genome Sequencer FLX System routinely assembles multiple complete microbial genomes into one scaffold per chromosome in a single sequencing run. The four assemblies above were compiled from a single GS FLX Titanium sequencing run, using one 8 kb span paired end library per genome. Data was analyzed using the GS De Novo Assembler software supplied with the system.
The GS FLX Titanium Series delivers unmatched benefits, including:
- Streamlined de novo sequencing process
- Combine multiple shotgun and paired end libraries in the same sequencing run to improve efficiency.
- Generate high quality draft assemblies with just one sequencing platform, and significantly reduce or eliminate the use of old, expensive and slow technologies such as fosmids and Sanger sequencing.
- Faster time to high-quality results
- Produce multiple shotgun and paired end libraries covering a wide range of span distances in just a few days.
- Go from sample DNA to high quality draft assemblies of multiple small genomes in as little as one week with the quick 10-hour instrument run time and dedicated suite of analysis software, including the GS De Novo Assembler.
- Reduced total costs
- Simplified sequencing processes and included analysis tools trim overall time and labor costs.
- Significantly reduce dependence on expensive fosmid cloning with unique GS FLX Titanium series 20 kb paired end libraries.
- Compact data files eliminate the need for expensive computing infrastructure.
The GS FLX Titanium Series features:
Long reads - Extra long 400-600 base pair shotgun reads can sequence through many genomic repeat features directly without the need for paired ends.
Long tags - Paired end reads with long tags, averaging 140-200+ bases, can be aligned uniquely with higher confidence.
Long spans - Long 20 kb paired end reads can span most repeat regions in nearly any size genome.
Span variety - The broad selection of insert lengths enables optimization of project design according to the unique characteristics of any genome for the best possible results.
How it Works:
Figure 1: Overview of the GS FLX Titanium series Paired End protocols. Genomic DNA is sheared into 20 kb, 8 kb or 3 kb fragments. Adaptors are added to the end of each fragment, facilitating circularization. The circularized DNA is fragmented and fragments containing the added adaptors are isolated for sequencing, and generate true paired end reads with two end tags averaging over 140 bp and separated by 20 kb, 8kb or 3kb.