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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 31683 | 3' | -55.4 | NC_006883.1 | + | 27958 | 0.76 | 0.56916 |
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Target: 5'- uCCGACuGGUCCUGCuGGuCCuACUGGu -3' miRNA: 3'- -GGCUGuCCAGGGUGuCCuGGuUGACC- -5' |
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| 31683 | 3' | -55.4 | NC_006883.1 | + | 27988 | 0.72 | 0.822055 |
|
Target: 5'- -aGAU-GGUCCUcCAGGuCCAACUGGu -3' miRNA: 3'- ggCUGuCCAGGGuGUCCuGGUUGACC- -5' |
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| 31683 | 3' | -55.4 | NC_006883.1 | + | 28054 | 0.68 | 0.954887 |
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Target: 5'- uCCucCAGGUCCUcCAGGuCCAggcggaACUGGn -3' miRNA: 3'- -GGcuGUCCAGGGuGUCCuGGU------UGACC- -5' |
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| 31683 | 3' | -55.4 | NC_006883.1 | + | 28087 | 0.72 | 0.788198 |
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Target: 5'- uCCuGCuGGUCCUcCAGGACCucCUGGu -3' miRNA: 3'- -GGcUGuCCAGGGuGUCCUGGuuGACC- -5' |
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| 31683 | 3' | -55.4 | NC_006883.1 | + | 28119 | 0.72 | 0.805413 |
|
Target: 5'- cCUG-UAGGUCCUGUAGGACCAGUUGGa -3' miRNA: 3'- -GGCuGUCCAGGGUGUCCUGGUUGACC- -5' |
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| 31683 | 3' | -55.4 | NC_006883.1 | + | 28183 | 0.68 | 0.947034 |
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Target: 5'- uCCGuCAGcaCCaGCAGGACCAGUUGGa -3' miRNA: 3'- -GGCuGUCcaGGgUGUCCUGGUUGACC- -5' |
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| 31683 | 3' | -55.4 | NC_006883.1 | + | 28246 | 0.7 | 0.894823 |
|
Target: 5'- uCCGACuGGUCCaACuGGuCCAACaGGu -3' miRNA: 3'- -GGCUGuCCAGGgUGuCCuGGUUGaCC- -5' |
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| 31683 | 3' | -55.4 | NC_006883.1 | + | 28366 | 0.74 | 0.714837 |
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Target: 5'- aCCaGgAGGUCCUGgAGGACCAGCaGGa -3' miRNA: 3'- -GGcUgUCCAGGGUgUCCUGGUUGaCC- -5' |
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| 31683 | 3' | -55.4 | NC_006883.1 | + | 162720 | 0.7 | 0.875 |
|
Target: 5'- uCUGGCAGGUgCUcCAGGAUCAGCa-- -3' miRNA: 3'- -GGCUGUCCAgGGuGUCCUGGUUGacc -5' |
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| 31683 | 3' | -55.4 | NC_006883.1 | + | 222950 | 0.67 | 0.958501 |
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Target: 5'- aCCaGCAGGaCCaGCAGGACCAGgaGa -3' miRNA: 3'- -GGcUGUCCaGGgUGUCCUGGUUgaCc -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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