Dear All, What is preferred insert size when sequencing on MiSeq 2250 length ? What is the effect on the data quality if you sequence 500bp library on 1002 read length sequencing?
You don't have a 500 bp insert library where every insert is that size (BTW is that actual insert or size of the whole fragment i.e. insert + 2 x 70 bp adapters = 500 bp). There is going to be a distribution of sizes that will vary based on the quality of your library. If you have a predominance of smaller inserts then your data quality can potentially suffer if you happen to sequence past the insert into the adapter on other end.
That said neither 2 x 250 bp nor 2 x 100 bp should matter with a good 500 bp library. Decide the length of sequencing based on intended application of data (longer reads can allow more specific alignments) followed by cost.
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
version 2.3.6
What do you mean by "1002 read length"?