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Archiver > GENEALOGY-DNA > 2006-08 > 1154500417


From: "James A. Honeychuck" <>
Subject: Re: [DNA] Sorenson mtDNA search engine bug
Date: Wed, 02 Aug 2006 07:33:37 +0100


Well maybe I've been trying to follow this thread too late at night or
too early in the morning, or maybe I'm just the only person confused by
this. So let me unashamedly ask:

Exactly what numbers do I put into the Sorenson search engine to search
on this sequence?

048A,093C,224C,291T,311C,519C 073G,195C,263G,315.1C,497T,524.1C,524.2A

Thanks in advance.
Jim
mtDNA K


In a message dated 8/1/2006 10:55:35 AM Pacific Daylight Time,
<mailto:> writes:

> There's a minor bug in the Sorenson search engine (it has a workaround).
> It seems that when the search engine encounters a site with multiple
> mutations, it treats them as all being part of the required search.
> IOW when we search for 524.1A, you can't just search for no
> variants--you have to have at least one difference to allow for 524.2C.
> So to be specific when I searched on 499A and 524.1A, if I made the
> allowed number of differences be zero, I get a sorry message. IfOTOH
> one allows for one or 2 differences, one gets one difference hits on
> BOTH 499A,524.1A and 499A,524.2C even though one didn't set 524.2C as a
> search parameter.
> JAL
>

>>In this particular case, it's best to enter both 524.1A and 524.2C as
part of
your search strategy. That region has several sets of "AC" in a row, and
mutations (insertions and deletions of the "AC" motif) in that region
almost
always come in pairs. In fact, I can't recall off-hand seeing one
without the
other, although it's theoretically possible, like partial repeats in Y
STR markers.

Ann Turner

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