Thursday, March 15, 2007

Berry Project mtDNA analysis

I took the receipt of Mary Ann's HVR2 results the other day for the incentive to do a short analysis of the Project mtDNA data for those who have had both HVR1 and HVR2 tested.    'Analysis' is a little strong for what I'm doing here, actually.    It's more like gathering, comparing and presenting data.    I'm afraid that I can't begin to tell you what it means.

Summary of mtDNA Markers

HVR1 (+16000)HVR2
Markers1
6
5
1
9
C
1
6
1
8
9
C
1
6
1
2
6
C
1
6
2
9
4
T
Unique
Mutations		2
6
3
G
3
1
5
.
1
C
7
3
G
3
0
9
.
1
C
5
2
4
.
2
A
5
2
4
.
1
C
Unique
Mutations
Freq(%)
Count		100.0
6		33.3
2		33.3
2		33.3
2		16.7
1		100.0
6		100.0
6		66.7
4		50.0
3		33.3
2		33.3
2		16.7
1
IDHG
ABYA7H+   ++ +  196C
84XEKH+   ++    
N25QDR*+   311C++++++295A,309.2C
RQMXCT*++++183C,182C,298C+++   195C
3XCBKT2+ ++296T,304C++++  458T
55KEYU2++  051G,129C,256T+++ ++217C,340T,508G
Notes:
  1. Red Markers indicate >50% of samples tested were positive for marker
  2. * Data Entries are omitted in Genetic Distance Calculations (No HVR2 Data)
  3. * Markers are ignored in Genetic Distance Calculations
  4. + in column indicates the samples tested positive for marker
  5. blank in column indicates the samples tested negative for marker
  6. N in column indicates the samples were not tested for marker and omitted from frequency calculations

Genetic Distance Report

NameA
B
Y
A
7
8
4
X
E
K
N
2
5
Q
D
R
Q
M
X
C
3
X
C
B
K
5
5
K
E
Y
ABYA702710712
84XEK2078710
N25QD770131011
RQMXC108130914
3XCBK77109015
55KEY12101114150
Genetic Distance 0 1 2 3 > 3
A lower number in a column indicates a closer match
The above tables created with mtDNAtool version 0.48

posted by langolier at 9:45 AM

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