miRNA: 3'- uUAGGAAC-GCGuCCGGUG-------------CUCCUGUc -5'
miRNA: 3'- uUAGGAa--CGCgUCCGGugCUCCuGUC- -5'
miRNA: 3'- uuaGGaa-CGCGUCCGGUgCUCCUGUC- -5'
miRNA: 3'- -UUAGGAACGCGUCCGGUGCUCCUGUC- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 17657 | 5' | -56.9 | NC_004466.2 | + | 17402 | 0.66 | 0.544251 |
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Target: 5'- cAUCCUUGuUGCuGGCCAUaguguuaagaccaGAGGAUAc -3' miRNA: 3'- uUAGGAAC-GCGuCCGGUG-------------CUCCUGUc -5' |
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| 17657 | 5' | -56.9 | NC_004466.2 | + | 35606 | 0.66 | 0.491669 |
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Target: 5'- uGUCCUuugGCGaAGGCCuuGAGG-CAGa -3' miRNA: 3'- uUAGGAa--CGCgUCCGGugCUCCuGUC- -5' |
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| 17657 | 5' | -56.9 | NC_004466.2 | + | 15093 | 0.7 | 0.315317 |
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Target: 5'- --cCCaggGUGUAGGCCA-GAGGGCAGc -3' miRNA: 3'- uuaGGaa-CGCGUCCGGUgCUCCUGUC- -5' |
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| 17657 | 5' | -56.9 | NC_004466.2 | + | 38104 | 1.05 | 0.000794 |
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Target: 5'- cAAUCCUUGCGCAGGCCACGAGGACAGc -3' miRNA: 3'- -UUAGGAACGCGUCCGGUGCUCCUGUC- -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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