miRNA: 3'- -CgGUGGCAucUCGGua-CGCGAGUaua -5'
miRNA: 3'- -CGGUGGCaUCU-CGGU------------ACGCGAgUAUa -5'
miRNA: 3'- -CGGUGGCa---UCUCGGUaCGCGaGUaua -5'
miRNA: 3'- -CGGUGGCA-----UCUCGGUacgCGAGUAua -5'
miRNA: 3'- -CGGUGGCAUCUCGGUACGCGAGUAUA- -5'
Results 1 - 5 of 5 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 | |||||||
| 22251 | 5' | -54.1 | NC_005045.1 | + | 30248 | 0.66 | 0.646912 |
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Target: 5'- gGgCGCCGU--GGCCuggGCGCUCAa-- -3' miRNA: 3'- -CgGUGGCAucUCGGua-CGCGAGUaua -5' |
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| 22251 | 5' | -54.1 | NC_005045.1 | + | 20842 | 0.67 | 0.589587 |
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Target: 5'- cGCCGCCG-AGAcGCCAucgcaguggaguUGCGCUaAUGa -3' miRNA: 3'- -CGGUGGCaUCU-CGGU------------ACGCGAgUAUa -5' |
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| 22251 | 5' | -54.1 | NC_005045.1 | + | 1894 | 0.68 | 0.555574 |
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Target: 5'- cGCUACCGacccGGAGCCA-GCGC-CAg-- -3' miRNA: 3'- -CGGUGGCa---UCUCGGUaCGCGaGUaua -5' |
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| 22251 | 5' | -54.1 | NC_005045.1 | + | 11680 | 0.69 | 0.46834 |
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Target: 5'- uGCCGCCGUacuucGGAGCCA---GCUCGUc- -3' miRNA: 3'- -CGGUGGCA-----UCUCGGUacgCGAGUAua -5' |
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| 22251 | 5' | -54.1 | NC_005045.1 | + | 12070 | 1.09 | 0.000793 |
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Target: 5'- cGCCACCGUAGAGCCAUGCGCUCAUAUg -3' miRNA: 3'- -CGGUGGCAUCUCGGUACGCGAGUAUA- -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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