[CompBio]

The template DNA fragment is longer than the read length but since a only finite number of cycles are being performed it does not matter how long the template is.

Thanks for responding so quickly. That was the piece I was missing. I had assumed that if you had 200-bp fragments, you'd want to sequence the whole thing.

I've seen in the literature and in data files (e.g., NCBI's short read archive) that the base call error rate increases with read length--is that why runs are limited to 40 or 50 cycles?

[Anthony]

Hi,
The fragmentation range is from 60bp up to 3KB. The system is highly reproducible at selected fragmentation size. If you need any help please feel free to contact me [email protected] , plentyof papers around and support litereature. Thanks

Hi,
I would like to know the fragmentation size spectrum of the covaris s2. Some resources state that the minimum size is around 600 bp but others state that it is 60 bp. Besides, does reproducibility varies along fragment size?
Thank you

[greigite]

insert size and evenness

I'm also curious what people's experience is using different library insert sizes. This paper recommends a 600 bp insert size to lessen over-representation of ends relative to 200 bp. Any comments on your observations of insert size/coverage evenness?

[jgibbons1]

marklar...i was wondering if you could give me a ballpark estimate of the Bioruptor price.
We're looking to get one of these machines as well.

Thanks,
John