User:Tara K. Luckau/Notebook/Team ConGen/2011/03/31

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Diversity Panel Frag Results

H2O

  • water has large peak at 160bp
  • Buffer F 20110323 Frag H2O-F.jpg
  • Buffer G 20110323 Frag H2O-G.jpg
  • Buffer H 20110323 Frag H2O-H.jpg

SCOC RAJ X01

  • RAJ has only water peaks :(
  • Buffer F 20110323 Frag RAJ-F.jpg
  • Buffer G 20110323 Frag RAJ-G.jpg
  • Buffer H 20110323 Frag RAJ-H.jpg

SCOC HOL X01

  • HOL has only water peaks :(
  • Buffer F 20110323 Frag HOL-F.jpg
  • Buffer G 20110323 Frag HOL-G.jpg
  • Buffer H 20110323 Frag HOL-H.jpg

SCOC SYR2 X01

  • Buffer F 20110323 Frag SYR2-F.jpg
  • Buffer G 20110323 Frag SYR2-G.jpg
  • Buffer H 20110323 Frag SYR2-H.jpg
2 peaks! at 115.36, 119.38
they're 4 bp apart, with very small (leading?) peak at 111.36 bp

SCOC CPN X01

  • Buffer F 20110323 Frag CPN-F.jpg
  • Buffer G 20110323 Frag CPN-G.jpg
multiple peaks! at 115.45, 119.5, 123.57, 127.84
all are 4 bp apart, with (leading) peak at 111.43
  • Buffer H 20110323 Frag CPN-H.jpg
multiple peaks! at 78.35, 99.09, 103.09, 115.43, 119.47, 123.54
pairs of peaks are 4bp apart, with only one (leading) peak at 111.24

SCOC TP1 X01

  • Buffer F 20110323 Frag TP1-F.jpg
multiple peaks! at 99.09, 103.12, 111.31, 115.35, 123.50, 127.79
all are 4bp apart, with small (leading) peak at 119.41
  • Buffer G 20110323 Frag TP1-G.jpg
multiple peaks! at 107.24, 111.24, 119.47, 123.54, 127.82
all are 4bp apart, with small (leading) peaks at 103.09, 115.26
ladder lane is very short
  • Buffer H 20110323 Frag TP1-H.jpg
multiple peaks! at 103.27, 107.42, 111.41, 119.63, 123.68, 127.92
all are 4bp apart, with small (leading) peaks at 115.42
ladder lane is very short

SCOC TP3 X01

  • TP3 has only water peaks :(
  • Buffer F 20110323 Frag TP3-F.jpg
  • Buffer G 20110323 Frag TP3-G.jpg
  • Buffer H 20110323 Frag TP3-H.jpg

SCOC LOM X01

  • LOM has only water peaks :(
  • Buffer F 20110323 Frag LOM-F.jpg
  • Buffer G 20110323 Frag LOM-G.jpg
  • Buffer H 20110323 Frag LOM-H.jpg


Diversity Panel Frag Conclusions

  • these are much smaller than the expected 131 to 191 bp reported in Lance, et al.
  • peaks are 4 peaks apart, consistent with 4bp motif
  • of the 3 samples that yielded amplicons, Buffer H worked for all three - but profiles were not consistent across Buffers


Next Steps

  • Why didn't some of the DNA work? Look up quantification values - are SCOC RAJ X01, HOL X01, TP3 X01, LOM X01 low?
  • What are the differences between the DNAs that worked?
20110323 FragScun2Diversity.jpg
green cells indicate a shorter (leading?) peak