miRNA: 3'- ucuCGACu-CGGGGa-CCUAG--GGCUGGU- -5'
miRNA: 3'- -UCUCG---ACUCGGGGaCCuAGGGCugGU- -5'
miRNA: 3'- -UCUCGAc--UCGGGG---ACCUaGGGCUGGU- -5'
miRNA: 3'- ucuCGA-CUCGGGGACCUAGGGCUggu -5'
miRNA: 3'- -UCUCGACUCGGGGACCUAGGGCUGGU- -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 | |||||||
| 31645 | 5' | -60.4 | NC_006879.1 | + | 24941 | 0.66 | 0.330156 |
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Target: 5'- --cGCUGccGCCCCaaGGAUCcaCCGGCCAc -3' miRNA: 3'- ucuCGACu-CGGGGa-CCUAG--GGCUGGU- -5' |
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| 31645 | 5' | -60.4 | NC_006879.1 | + | 17557 | 0.69 | 0.186483 |
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Target: 5'- cGGAGUaccUGAGCCCC-GG-UCUCGugCAg -3' miRNA: 3'- -UCUCG---ACUCGGGGaCCuAGGGCugGU- -5' |
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| 31645 | 5' | -60.4 | NC_006879.1 | + | 25268 | 0.7 | 0.171829 |
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Target: 5'- uGGAGCUaucAGCCCCagaUGGG-CCUGGCCGc -3' miRNA: 3'- -UCUCGAc--UCGGGG---ACCUaGGGCUGGU- -5' |
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| 31645 | 5' | -60.4 | NC_006879.1 | + | 24090 | 0.74 | 0.089919 |
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Target: 5'- --uGCUgGGGCCCCUGGAUCUCGAa-- -3' miRNA: 3'- ucuCGA-CUCGGGGACCUAGGGCUggu -5' |
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| 31645 | 5' | -60.4 | NC_006879.1 | + | 23116 | 1.08 | 0.000189 |
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Target: 5'- gAGAGCUGAGCCCCUGGAUCCCGACCAc -3' miRNA: 3'- -UCUCGACUCGGGGACCUAGGGCUGGU- -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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