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Old 05-26-2009, 07:36 AM   #2
Melissa
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Location: Switzerland

Join Date: Aug 2008
Posts: 124
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That's the Sanger's way to detect SNPs. All Sanger sequencing requires the forward and reverse primer of the amplicon. The forward sequences are sequenced from the forward primer and vice versa. Therefore, both forward and reverse sequences should reverse complement each other.

Say, you want to detect SNPs in individual 1 & 2. You have forward and reverse sequences from both individuals (shown below). At first look, it seems like there's a T/C SNPs. But, there's a high probability that base C in sequence 2F is a sequencing error because it's not present in the reverse strand.

1F - AATAA
2R - AATAA
2F - AACAA
2R - AATAA

SOLiD can detect the orientation of the reads. I was told that this is one of the advantage of SOLiD over other platforms. I really don't see the importance. Any thoughts?
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