miRNA: 3'- -GCUAGUACG---CCUuCGUGCGUU-----UCGAc -5'
miRNA: 3'- -GCUaGUACGCCUUCGuGCGUUU---CGAC- -5'
miRNA: 3'- gCUAGUACGCcUUCG-UGCGUU-UCGAC- -5'
miRNA: 3'- -GCUaguaCGCCUUCGUGCGu----UUCGAC- -5'
miRNA: 3'- -GCUAGUACGCCUUCGUGCGUUUCGAC- -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
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| Predicted miRNA align pattern | |||||||
| 13000 | 3' | -51.3 | NC_003387.1 | + | 13951 | 0.72 | 0.527798 |
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Target: 5'- gCGGUCAUGUcuuGGAuGCACGCGAuuucuGGCUc -3' miRNA: 3'- -GCUAGUACG---CCUuCGUGCGUU-----UCGAc -5' |
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| 13000 | 3' | -51.3 | NC_003387.1 | + | 43730 | 0.73 | 0.516805 |
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Target: 5'- gCGG-CAUGCGGGAGCcCGCGAGcguGUUGg -3' miRNA: 3'- -GCUaGUACGCCUUCGuGCGUUU---CGAC- -5' |
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| 13000 | 3' | -51.3 | NC_003387.1 | + | 42375 | 0.73 | 0.516805 |
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Target: 5'- gGAUCAUGUGcGGGCuGCGCAAcGGCUGc -3' miRNA: 3'- gCUAGUACGCcUUCG-UGCGUU-UCGAC- -5' |
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| 13000 | 3' | -51.3 | NC_003387.1 | + | 27042 | 0.73 | 0.495107 |
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Target: 5'- gCGAggcgGCGGAAGCAUGUcggcuGAGCUGa -3' miRNA: 3'- -GCUaguaCGCCUUCGUGCGu----UUCGAC- -5' |
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| 13000 | 3' | -51.3 | NC_003387.1 | + | 50924 | 1.1 | 0.001781 |
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Target: 5'- aCGAUCAUGCGGAAGCACGCAAAGCUGa -3' miRNA: 3'- -GCUAGUACGCCUUCGUGCGUUUCGAC- -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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