UGENE Forum - How can I map reads to an existing mapping file?

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UGENE Forum › General Category › Help and How-to › How can I map reads to an existing mapping file?

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How can I map reads to an existing mapping file? (Read 3318 times)

Sep 4^th, 2020 at 4:07am

mora161 Offline
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Posts: 2

Hi!

I inherited a project and I only have the UGENE file (.ugenedb) which contain reads mapped to a genome. I want to know if there is a way to map new reads in that file. I can't find any way to do it. The alternative is mapping my new reads to the same genome in a different file, but his way I can't create a consensus sequence, which is the main point of the project.

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Reply #1 - Sep 4^th, 2020 at 11:12pm

Dmitrii Sukhomlinov Offline
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Russia

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Posts: 82

Ok, let's specify the question more clearly. What kind of alignment you have? Does is Sanger alignment? With chromatograms? If yes, I'm sorry to say, but there is no way to map new reads on it. The alignment is built one time and you cannot align new reads on it. If it is some other kind of alignment, please, specify it.

Best regards,
Dmitrii Sukhomlinov,
The UGENE team.

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Reply #2 - Sep 17^th, 2020 at 10:09pm

mora161 Offline
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It's a Sanger alignment with chromatograms so is a bummer that the alignment is built that way. Thanks for the reply.

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