We just did yesterday a run with paired-end libraries on the GS Junior and the results are very strange. ![Frown](https://www.seqanswers.com/core/images/smilies/frown.png)
We had no problem to prepare the libraries. Good concentration and good profile on Agilent Bioanalyzer.
![](http://img19.imageshack.us/img19/8822/3vm8.png)
We did the emulsion as usual and get 5% of enrich beads.
Usually we 8-9% but since we had 5% we decided to go on.
Today we get the results and it was very bad.
![](http://imageshack.us/a/img5/5466/2wjc.png)
![](http://imageshack.us/a/img6/2048/iqbj.png)
![](http://imageshack.us/a/img607/5750/0dfj.png)
We obtain a normal range of raw wells and sample key pass but we had a lot of mix and dots and very few passed filter wells.
I would to understand if my libraries are good or not.
Can you tell me were is the sample key? Before or after adaptors?
With such results I wonder if adaptors ligation went well.
I don't understand why I have a lot of mixed and dot beads but a good beads enrichment...
If someone can help me to understand!![Roll Eyes (Sarcastic)](https://www.seqanswers.com/core/images/smilies/rolleyes.png)
I hope I post in the appropriate category!
Thank you in advance!
![Frown](https://www.seqanswers.com/core/images/smilies/frown.png)
We had no problem to prepare the libraries. Good concentration and good profile on Agilent Bioanalyzer.
![](http://img19.imageshack.us/img19/8822/3vm8.png)
We did the emulsion as usual and get 5% of enrich beads.
Usually we 8-9% but since we had 5% we decided to go on.
Today we get the results and it was very bad.
![](http://imageshack.us/a/img5/5466/2wjc.png)
![](http://imageshack.us/a/img6/2048/iqbj.png)
![](http://imageshack.us/a/img607/5750/0dfj.png)
We obtain a normal range of raw wells and sample key pass but we had a lot of mix and dots and very few passed filter wells.
I would to understand if my libraries are good or not.
Can you tell me were is the sample key? Before or after adaptors?
With such results I wonder if adaptors ligation went well.
I don't understand why I have a lot of mixed and dot beads but a good beads enrichment...
If someone can help me to understand!
![Roll Eyes (Sarcastic)](https://www.seqanswers.com/core/images/smilies/rolleyes.png)
I hope I post in the appropriate category!
Thank you in advance!
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