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Ranks of adjacent nucleotide proportions of candidate SNPs in D. Rerio |
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| Observed proportion |
Proportion bias |
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|
|
|
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| SNP type |
-1 |
+1 |
-1 |
+1 |
|
|
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| All |
T » A » C > G* |
A » T » G > C |
T > C > a ≈ g† |
A > G > t ≈ c |
| Transition |
T » A » C > G |
A » T » G > C |
T > C > g > a |
A ≈ G > c > t |
| Transversion |
T > A » C > G |
A > T » G > C |
T > A > c > g |
A > T > g > c |
| A/G |
T » A » C » G |
A » T » G > C |
C > T » g > a |
A > G > c > t |
| C/T |
T » A » C > G |
A » T > G » C |
T > C > g > a |
G > A » c > t |
| A/C |
A » T » C » G |
A » T » C » G |
A > C » t ≈ g |
A » C » g > t |
| G/T |
T » A » G » C |
T » A » G » C |
T » G » c > a |
T > G » a > c |
| A/T |
T > A » C » G |
A > T » G » C |
T > A > c » g |
A > T > g » c |
| C/G |
T > A » G » C |
A > T » C » G |
G > T > A » c |
C > A > T » g |
|
*» denotes greater than 5% difference between two nucleotide proportions, > 1%-5% difference, and ≈ less than 1% difference. †A lower-case letter denotes a negative bias of the observed nucleotide proportion compared with the genome average. | ||||
Bradley et al. Genome Biology 2007 8:R55 doi:10.1186/gb-2007-8-4-r55 |
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