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Old 06-30-2011, 03:15 PM   #1
Abishai3911
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Question 454 data analysis & Mapping

Hi,

I just got back data on a 454 run (.fna and .qual files) on some PCR amplicons. I am on the look out for a software program that can help me do the data analysis including sequence alignment, mapping of these sequences to a reference sequence/sequences etc. Can someone suggest?

Thanks,
JAG
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Old 07-01-2011, 03:01 AM   #2
TonyBrooks
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You could start with the Roche 454 GS Amplicon Mapper. It's designed specifically to do exactly what you want on 454 data.
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Old 07-01-2011, 08:52 AM   #3
Abishai3911
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Thanks Tony,

I do not have access to the 454 instrument and as such that software. Is there any other easy to use software (trial version) that I can install on my PC and perform the data analysis?

JAG
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Old 07-03-2011, 03:27 AM   #4
colindaven
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I would get in contact with the sequencing provider and ask for access to the Roche software. That's one of only a few packages I know of which can deal with this problem, the others being commercial software like Clc genomics and perhaps Lasergene.
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