miRNA: 3'- cuAugGAGCCGGaGACUAGUGGu----CCG- -5'
miRNA: 3'- cUAUGGa---GCCGGa---GACUAGUGguCCG- -5'
miRNA: 3'- -CUAUGGAGCCGGAGACUAGUGGUCCG- -5'
Results 1 - 3 of 3 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 | |||||||
| 325 | 3' | -55.1 | AC_000010.1 | + | 7355 | 0.67 | 0.496307 |
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Target: 5'- -uUugCUCGGUUaUUGAUCACCugagcGGCu -3' miRNA: 3'- cuAugGAGCCGGaGACUAGUGGu----CCG- -5' |
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| 325 | 3' | -55.1 | AC_000010.1 | + | 5928 | 0.69 | 0.424076 |
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Target: 5'- uAUACCccacCGGCUggaaCUGGUCACguGGCc -3' miRNA: 3'- cUAUGGa---GCCGGa---GACUAGUGguCCG- -5' |
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| 325 | 3' | -55.1 | AC_000010.1 | + | 27223 | 1.12 | 0.000329 |
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Target: 5'- gGAUACCUCGGCCUCUGAUCACCAGGCg -3' miRNA: 3'- -CUAUGGAGCCGGAGACUAGUGGUCCG- -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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