Hi guys!
We recently began working with Ion Torrent PGM. At first we were thinking that server cuts off all adapters and barcodes and we are getting our clear and clean data out. Then we began noticing that sequences do have something in common at the end.
Through the process of googling and brainsturming, we found that about 40% of all our output data has got REVERSE P1 + B adapters at the end of our sequences.
P1: ATCACCGACTGCCCATAGAGAGG
B: CTGAGACTGCCAAGGCACACAGGGGATAGG
This is kinda wierd and we are not sure how to deal with that. We are thinking that this might have a negatine influence on our results increasing “unknown” and “unclassified” domens.
Also, quite mysterious that we see a lot of REVERSE primers but very little FORWARD ones.
Has anyone faced similar problems? What do you do about it?
Will be very thankfull for any ideas/ thoughts/ advices!
Kind regards,
Alisa
We recently began working with Ion Torrent PGM. At first we were thinking that server cuts off all adapters and barcodes and we are getting our clear and clean data out. Then we began noticing that sequences do have something in common at the end.
Through the process of googling and brainsturming, we found that about 40% of all our output data has got REVERSE P1 + B adapters at the end of our sequences.
P1: ATCACCGACTGCCCATAGAGAGG
B: CTGAGACTGCCAAGGCACACAGGGGATAGG
This is kinda wierd and we are not sure how to deal with that. We are thinking that this might have a negatine influence on our results increasing “unknown” and “unclassified” domens.
Also, quite mysterious that we see a lot of REVERSE primers but very little FORWARD ones.
Has anyone faced similar problems? What do you do about it?
Will be very thankfull for any ideas/ thoughts/ advices!
Kind regards,
Alisa
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