miRNA: 3'- uCGCGCCAgCUACGCGua---GGguACGU- -5'
miRNA: 3'- uCGCGC-CaGCuACGCGUAgGGUa---CGU- -5'
miRNA: 3'- -UCGCGCCaGCUA--------------CGCGUaGGgUACGu -5'
miRNA: 3'- uCGCGCCAGcuACGCGUa--GGGUACGu -5'
miRNA: 3'- -UCG-CGCCaGCUA-CGCGUAGG-GUaCGU- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 24244 | 5' | -57.8 | NC_005263.2 | + | 31394 | 0.67 | 0.463341 |
|
Target: 5'- cGCGCGGUaGGUGCGCugcagCUgcUGCAg -3' miRNA: 3'- uCGCGCCAgCUACGCGua---GGguACGU- -5' |
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| 24244 | 5' | -57.8 | NC_005263.2 | + | 36002 | 0.66 | 0.504251 |
|
Target: 5'- cGCGCGcGcCGcUGCGCAUgCCAggccGCGa -3' miRNA: 3'- uCGCGC-CaGCuACGCGUAgGGUa---CGU- -5' |
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| 24244 | 5' | -57.8 | NC_005263.2 | + | 37211 | 0.67 | 0.470378 |
|
Target: 5'- cAGCGCGG-CGAUacgccgcucacgacGCGCG-CCgGUGCc -3' miRNA: 3'- -UCGCGCCaGCUA--------------CGCGUaGGgUACGu -5' |
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| 24244 | 5' | -57.8 | NC_005263.2 | + | 37452 | 0.74 | 0.171074 |
|
Target: 5'- cGCGCGGUC--UGCGCGgcgUCCAUGUg -3' miRNA: 3'- uCGCGCCAGcuACGCGUa--GGGUACGu -5' |
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| 24244 | 5' | -57.8 | NC_005263.2 | + | 45168 | 0.66 | 0.514724 |
|
Target: 5'- cGGCgGCGG-CGAUgGCGCAUUCgCGaGCAu -3' miRNA: 3'- -UCG-CGCCaGCUA-CGCGUAGG-GUaCGU- -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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