miRNA: 3'- -UAUuAUCG---GGUGCCuCGA--UGAGCUAG- -5'
miRNA: 3'- uauuaucgGGUGCCUCGAuGAGCUAg -5'
miRNA: 3'- uauUAUCGGGuGCCUCGAUGa----GCUAG- -5'
miRNA: 3'- -UAUUAUCGGGUGCCUCGAUGAGCUAG- -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 | |||||||
| 22824 | 3' | -51.3 | NC_005135.1 | + | 21409 | 0.66 | 0.989786 |
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Target: 5'- aAUAcUGGCaucCCGCGGcGUUaaGCUCGAUCa -3' miRNA: 3'- -UAUuAUCG---GGUGCCuCGA--UGAGCUAG- -5' |
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| 22824 | 3' | -51.3 | NC_005135.1 | + | 15788 | 0.67 | 0.976325 |
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Target: 5'- -------aCCGCGGAGCU-CUCGAUg -3' miRNA: 3'- uauuaucgGGUGCCUCGAuGAGCUAg -5' |
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| 22824 | 3' | -51.3 | NC_005135.1 | + | 21182 | 0.7 | 0.911525 |
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Target: 5'- --cAUAGCCC-CGGAGUUGCaucaaUGAUCg -3' miRNA: 3'- uauUAUCGGGuGCCUCGAUGa----GCUAG- -5' |
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| 22824 | 3' | -51.3 | NC_005135.1 | + | 90225 | 1.08 | 0.008797 |
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Target: 5'- gAUAAUAGCCCACGGAGCUACUCGAUCu -3' miRNA: 3'- -UAUUAUCGGGUGCCUCGAUGAGCUAG- -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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